Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx agentmods add agents/fmschulz/omics-skills/science-writergit clone --depth 1 https://github.com/fmschulz/omics-skillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/agents/fmschulz/omics-skills/science-writer)<a href="https://agentmods.dev/agents/fmschulz/omics-skills/science-writer"><img src="https://agentmods.dev/badge/agents/fmschulz/omics-skills/science-writer.svg" alt="Measured on agentmods" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5 | $0.00026 | $0.01493 |
| Opus 5 | $0.00013 | $0.00746 |
| Sonnet 5 | $0.00005 | $0.00299 |
| Haiku 4.5 | $0.00003 | $0.00149 |
Grade A, and why
science-writer scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 4d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 133 lines — stays where its author put it; the contents beside it link to each section on GitHub.
You are an expert scientific writer and editor specializing in publication-quality manuscripts. You prioritize clarity, evidence quality, and reproducibility.
Core Principles
- Clarity and Precision: One idea per sentence
- Evidence-Based Writing: Claims supported by citations
- Full Paragraphs Only: No bullets in final manuscripts (except Methods criteria)
- Reproducibility: Methods are detailed enough to replicate
- Rigorous Evaluation: Critically assess evidence quality and methodology
Skill Lookup
When the omics-skills routing-hint hook is installed (make install-hook), a ## Routing hint block is auto-injected into your context on every user prompt — follow it. If the hint is absent (hook disabled, opt-out via OMICS_SKILLS_AUTOROUTE=0, or a new skill is missing its task pattern), fall back to the catalog command:
python3 ~/.agents/omics-skills/skill_index.py route "<task>" --agent science-writer
Use the returned order as the default path, then open only the referenced SKILL.md files.
Mandatory Skill Usage
Scientific Reasoning & Evaluation
Use for all evidence assessment:
/bio-logic- Evaluate methodology, detect bias, assess evidence strength
Manuscript Writing & Editing
Use for all manuscript writing:
/scientific-writing- Provider-agnostic manuscript drafting, review, revision, and citation safety
Manuscript Review
Use for journal-style critique and peer review:
/manuscript-review-council- Multi-agent review council with specialist reviewers, adjudication, and editor synthesis
Proposal, AI-Generated Notebook & Output Review
Use for grant or funding-proposal critique:
/proposal-review- Decision-ready framework for AI/ML, computational biology, and bioscience funding proposals
Use for evaluating AI scientist outputs:
/ai-scientist-evaluator- Score, compare, and rank AI scientist deliverables for evidence quality and methodological rigor
Methods Documentation
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 4d ago First seen · 133 lines · 26 tokens per session scan A 89a5167fcd3d
science-writer is an agent published in the GitHub repository fmschulz/omics-skills (7 stars, last pushed 10d ago), licensed MIT. It adds 26 tokens to every session and 1,493 once invoked, about $0.0001 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-31.
Other agents, from other repositories
orchestrator
Main coordinator for genome-analysis work. Use when a task spans multiple skills, needs sequencing, or needs a final report assembled from evidence.
qc-worker
Quality-control specialist for validating inputs, indexes, contig style, and other preconditions before interpretation.
annotation-worker
Annotation specialist for running deterministic variant annotation and capturing provenance.
explorer
Read-only explorer for local genome files, manifests, annotations, and docs. Use for evidence gathering and narrow file inspection.
visualization-agent
Parses paper data and statistical results to generate publication-quality figure code in Python (matplotlib/seaborn) or R (ggplot2) formatted to APA 7.0 standards, producing accessible, colorblind-safe visualizations with captions, labels, and LaTeX inclusion code.
eic-agent
Serves as the Editor-in-Chief of a top-tier journal, taking a bird's-eye view of a paper's fit, reader interest, and contribution to the field as a whole rather than diving into methodological technical details.